Annotations: 3C4B

Structure of RNaseIIIb and dsRNA binding domains of mouse Dicer

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Ribonuclease_3	e3c4bA3	A: beta barrels	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: Ribonuclease_3	ECOD (v294.2)
A	Fer4_11	e3c4bA4	A: beta barrels	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: Fer4_11	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.1520.10	Mainly Alpha	Orthogonal Bundle	Ribonuclease iii, N-terminal Endonuclease Domain	Chain A	CATH (4.3.0)
A	3.30.160.20	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00636	Ribonuclease III domain (Ribonuclease_3)	Ribonuclease III domain	-	Family
A	PF20932	Dicer, dsRNA-binding domain (Dicer_dsRBD)	Dicer, dsRNA-binding domain	This domain is found in Endoribonuclease Dicer from chordates. This dsRNA endoribonuclease is involved in the cleavage of long RNA precursors into short dsRNAs and plays a role in gene silencing. Dicer shows two N-terminal helicase domains (Pfam:PF04 ...	This domain is found in Endoribonuclease Dicer from chordates. This dsRNA endoribonuclease is involved in the cleavage of long RNA precursors into short dsRNAs and plays a role in gene silencing. Dicer shows two N-terminal helicase domains (Pfam:PF04851 and Pfam:PF00271), a dimerisation domain (Pfam:PF03368), a Platform domain, a PAZ domain (Pfam:PF02170), an RNase IIIa/b domain (Pfam:PF00636) and a dsRNA-binding domain in its C-terminal region (this entry). This domain protrudes from the RNase IIIb domain in the middle of the protein. It may be involved in recruiting RNA substrates [1,2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Endoribonuclease Dicer	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding endonuclease activity nuclease activity catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity catalytic activity ribonuclease III activity double-stranded RNA-specific ribonuclease activity RNA endonuclease activity producing 5'-phosphomonoesters, hydrolytic mechanism hydrolase activity hydrolase activity, acting on ester bonds cation binding metal ion binding protein binding protein domain specific binding regulatory RNA binding RNA binding siRNA binding miRNA binding pre-miRNA binding double-stranded RNA binding nucleic acid conformation isomerase activity isomerase activity helicase activity macromolecular conformation isomerase activity ATP-dependent activity DNA nuclease activity DNA endonuclease activity deoxyribonuclease I activity catalytic activity, acting on DNA DNA endonuclease activity, producing 5'-phosphomonoesters	developmental process multicellular organism development multicellular organismal process skeletal system development connective tissue development anatomical structure development animal organ development tissue development cartilage development system development regulation of multicellular organismal development regulation of biological process regulation of cellular process regulation of developmental process developmental process multicellular organism development multicellular organismal process skeletal system development connective tissue development anatomical structure development animal organ development tissue development cartilage development system development regulation of multicellular organismal development regulation of biological process regulation of cellular process regulation of developmental process cellular developmental process biological regulation cell development regulation of neurogenesis regulation of cell differentiation nervous system development regulation of cell development regulation of nervous system development neurogenesis cell differentiation regulation of multicellular organismal process cellular process tissue morphogenesis anatomical structure morphogenesis epithelium development epidermis morphogenesis epidermis development morphogenesis of an epithelium regulation of tumor necrosis factor production negative regulation of biological process negative regulation of tumor necrosis factor production cytokine production regulation of cytokine production negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of metabolic process tumor necrosis factor superfamily cytokine production negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process tumor necrosis factor production regulation of gene expression negative regulation of gene expression regulation of tumor necrosis factor superfamily cytokine production biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of tumor necrosis factor superfamily cytokine production metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process negative regulation of multicellular organismal process regulation of metabolic process tube development branching morphogenesis of an epithelial tube tube morphogenesis morphogenesis of a branching structure epithelial tube morphogenesis morphogenesis of a branching epithelium post-transcriptional regulation of gene expression global gene silencing by mRNA cleavage post-transcriptional gene silencing regulation of gliogenesis negative regulation of glial cell proliferation negative regulation of neurogenesis regulation of glial cell proliferation gliogenesis negative regulation of nervous system development negative regulation of cell differentiation negative regulation of cell population proliferation cell population proliferation negative regulation of developmental process negative regulation of gliogenesis negative regulation of cell development regulation of cell population proliferation glial cell proliferation mechanoreceptor differentiation inner ear receptor cell development ear development sensory organ development inner ear receptor cell differentiation generation of neurons neuron differentiation inner ear development neuron development positive regulation of biological process RNA metabolic process positive regulation of miRNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process regulation of RNA metabolic process regulation of miRNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process miRNA metabolic process positive regulation of cellular process primary metabolic process nucleic acid metabolic process positive regulation of RNA metabolic process molting cycle process hair cycle skin development skin epidermis development hair follicle development molting cycle hair cycle process hair follicle morphogenesis embryonic hindlimb morphogenesis limb development appendage development embryonic limb morphogenesis embryonic morphogenesis hindlimb morphogenesis embryonic appendage morphogenesis embryo development appendage morphogenesis limb morphogenesis zygote asymmetric cell division cell division asymmetric cell division hair follicle cell proliferation immune system development spleen development immune system process hematopoietic or lymphoid organ development spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process spermatogonial cell division developmental process involved in reproduction male gamete generation gamete generation maintenance of cell number stem cell population maintenance microtubule cytoskeleton organization meiotic cell cycle meiotic spindle organization meiotic cell cycle process cellular component organization organelle organization microtubule-based process cell cycle cellular component organization or biogenesis cytoskeleton organization spindle organization cell cycle process positive regulation of cell population proliferation endothelial cell proliferation positive regulation of epithelial cell proliferation regulation of vascular endothelial cell proliferation regulation of endothelial cell proliferation positive regulation of endothelial cell proliferation regulation of epithelial cell proliferation vascular endothelial cell proliferation epithelial cell proliferation positive regulation of vascular endothelial cell proliferation regulation of leukocyte differentiation regulation of leukocyte activation regulation of cell activation mononuclear cell differentiation lymphocyte activation lymphocyte differentiation leukocyte activation regulation of T cell differentiation T cell activation T cell differentiation regulation of immune system process regulation of lymphocyte differentiation hemopoiesis regulation of regulatory T cell differentiation cell activation regulation of T cell activation regulatory T cell differentiation regulation of hemopoiesis leukocyte differentiation regulation of lymphocyte activation digestive system development intestinal epithelial cell differentiation intestinal epithelial cell development digestive tract development epithelial cell differentiation epithelial cell development columnar/cuboidal epithelial cell development columnar/cuboidal epithelial cell differentiation negative regulation of RNA biosynthetic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process multicellular organism growth developmental growth growth cellular response to stimulus regulation of signaling cell surface receptor signaling pathway response to stimulus signaling regulation of signal transduction cell communication Notch signaling pathway regulation of response to stimulus regulation of Notch signaling pathway regulation of cell communication signal transduction regulatory ncRNA-mediated post-transcriptional gene silencing regulatory ncRNA-mediated gene silencing muscle cell apoptotic process regulation of apoptotic process regulation of muscle cell apoptotic process regulation of programmed cell death cell death apoptotic process programmed cell death pre-miRNA processing RNA processing regulatory ncRNA processing miRNA processing endothelial cell-matrix adhesion regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of cell adhesion cell-substrate adhesion positive regulation of cell-matrix adhesion positive regulation of endothelial cell-matrix adhesion cell adhesion cell-matrix adhesion positive regulation of cell-substrate adhesion regulation of cell-matrix adhesion regulation of endothelial cell-matrix adhesion negative regulation of Schwann cell proliferation Schwann cell proliferation regulation of Schwann cell proliferation chordate embryonic development trophectodermal cell proliferation in utero embryonic development embryo development ending in birth or egg hatching blastocyst growth blastocyst development cardiac muscle cell development muscle cell differentiation striated muscle tissue development muscle structure development striated muscle cell development muscle cell development cardiac cell development muscle tissue development heart development cardiac muscle tissue development cardiac muscle cell differentiation cardiocyte differentiation circulatory system development striated muscle cell differentiation regulation of glial cell differentiation central nervous system development oligodendrocyte differentiation glial cell differentiation regulation of oligodendrocyte differentiation siRNA processing olfactory bulb interneuron differentiation forebrain development central nervous system neuron differentiation olfactory bulb development head development forebrain generation of neurons olfactory lobe development brain development telencephalon development forebrain neuron differentiation stem cell differentiation regulation of stem cell differentiation positive regulation of macromolecule biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process fibroblast proliferation regulation of hepatic stellate cell proliferation regulation of fibroblast proliferation positive regulation of hepatic stellate cell proliferation positive regulation of fibroblast proliferation hepatic stellate cell proliferation peripheral nervous system axon ensheathment cellular component assembly involved in morphogenesis glial cell development myelin assembly cellular component biogenesis cellular anatomical entity morphogenesis cellular component assembly axon ensheathment ensheathment of neurons myelination in peripheral nervous system Schwann cell differentiation peripheral nervous system development peripheral nervous system myelin formation myelination Schwann cell development anatomical structure formation involved in morphogenesis chromatin organization chromatin remodeling heterochromatin formation epigenetic regulation of gene expression heterochromatin organization pericentric heterochromatin formation constitutive heterochromatin formation negative regulation of gene expression, epigenetic tissue regeneration skeletal muscle tissue regeneration regeneration myoblast differentiation involved in skeletal muscle regeneration myoblast differentiation pallium development cerebral cortex development ribonucleoprotein complex biogenesis RISC complex assembly protein-RNA complex assembly protein-RNA complex organization protein-containing complex assembly protein-containing complex organization reproductive system development reproductive structure development nerve development regulation of establishment of endothelial barrier positive regulation of endothelial cell development endothelium development regulation of epithelial cell differentiation endothelial cell development positive regulation of developmental process positive regulation of cell differentiation regulation of endothelial cell development endothelial cell differentiation regulation of endothelial cell differentiation positive regulation of cell development positive regulation of establishment of endothelial barrier establishment of endothelial barrier biological process involved in interspecies interaction between organisms defense response to virus defense response response to other organism response to stress response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus collagen biosynthetic process regulation of collagen biosynthetic process regulation of collagen metabolic process positive regulation of collagen metabolic process positive regulation of collagen biosynthetic process collagen metabolic process positive regulation of DNA-templated transcription positive regulation of transcription by RNA polymerase II positive regulation of RNA biosynthetic process enamel mineralization tooth mineralization odontogenesis of dentin-containing tooth regulation of biomineral tissue development animal organ morphogenesis biomineral tissue development odontogenesis amelogenesis regulation of tooth mineralization regulation of enamel mineralization regulation of animal organ morphogenesis regulation of odontogenesis of dentin-containing tooth regulation of odontogenesis regulation of anatomical structure morphogenesis regulation of myelination heart morphogenesis cardiac neural crest cell development involved in heart development neural crest cell development mesenchyme development cardiac neural crest cell development involved in outflow tract morphogenesis stem cell development neural crest cell differentiation cardiac neural crest cell differentiation involved in heart development outflow tract morphogenesis mesenchymal cell differentiation positive regulation of locomotion regulation of cell motility endothelial cell migration positive regulation of cell migration regulation of locomotion positive regulation of endothelial cell migration positive regulation of cell motility regulation of cell migration regulation of endothelial cell migration cell migration cell motility locomotion blood vessel morphogenesis angiogenesis vasculature development blood vessel development positive regulation of nervous system development positive regulation of gliogenesis positive regulation of neurogenesis positive regulation of Schwann cell differentiation positive regulation of glial cell differentiation regulation of Schwann cell differentiation positive regulation of multicellular organismal process cell differentiation in spinal cord spinal cord development ventral spinal cord development spinal cord motor neuron differentiation respiratory tube development lung development respiratory system development rRNA processing ribosome biogenesis rRNA metabolic process regulation of biological quality RNA catabolic process mRNA stabilization mRNA catabolic process nucleobase-containing compound catabolic process nucleic acid catabolic process catabolic process macromolecule catabolic process negative regulation of mRNA metabolic process regulation of mRNA catabolic process negative regulation of catabolic process negative regulation of mRNA catabolic process negative regulation of RNA catabolic process regulation of catabolic process mRNA metabolic process regulation of mRNA stability RNA stabilization regulation of RNA stability regulation of mRNA metabolic process cell projection organization plasma membrane bounded cell projection morphogenesis neuron projection development cell morphogenesis cell projection morphogenesis neuron projection morphogenesis plasma membrane bounded cell projection organization organelle assembly membraneless organelle assembly spindle assembly chromosome segregation system process regulation of system process positive regulation of myelination positive regulation of nervous system process nervous system process regulation of nervous system process regulation of defense response regulation of response to external stimulus regulation of inflammatory response regulation of response to stress inflammatory response regulation of neuron differentiation regulation of viral life cycle regulation of viral process viral genome replication viral process regulation of viral genome replication viral life cycle cellular component disassembly DNA metabolic process execution phase of apoptosis apoptotic DNA fragmentation cellular component disassembly involved in execution phase of apoptosis DNA catabolic process apoptotic nuclear changes regulation of cell cycle post-embryonic development negative regulation of signaling response to cytokine negative regulation of cell communication cytokine-mediated signaling pathway cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway cellular response to cytokine stimulus regulation of tumor necrosis factor-mediated signaling pathway negative regulation of response to stimulus regulation of cytokine-mediated signaling pathway negative regulation of tumor necrosis factor-mediated signaling pathway negative regulation of signal transduction response to peptide regulation of response to cytokine stimulus negative regulation of response to cytokine stimulus negative regulation of cytokine-mediated signaling pathway response to chemical response to tumor necrosis factor ganglion development	protein-containing complex ribonucleoprotein complex RNAi effector complex RISC complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle protein-containing complex ribonucleoprotein complex RNAi effector complex RISC complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection synapse cell junction glutamatergic synapse perinuclear region of cytoplasm postsynaptic density, intracellular component postsynaptic specialization intracellular membraneless organelle postsynaptic specialization, intracellular component intracellular organelle postsynaptic density postsynapse neuron to neuron synapse membraneless organelle asymmetric synapse axon endoplasmic reticulum-Golgi intermediate compartment intracellular membrane-bounded organelle growth cone distal axon site of polarized growth RISC-loading complex endoribonuclease complex catalytic complex intracellular protein-containing complex endonuclease complex nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR044441	Dicer, double-stranded RNA-binding domain	Domain
A	IPR003100	PAZ domain	Domain
A	IPR048512	Dicer, platform domain	Domain
A	IPR036389	Ribonuclease III, endonuclease domain superfamily	Homologous Superfamily
A	IPR036085	PAZ domain superfamily	Homologous Superfamily
A	IPR048513	Dicer, partner-binding domain	Domain
A	IPR011907	Ribonuclease III	Family
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR006935	Helicase/UvrB, N-terminal	Domain
A	IPR001650	Helicase, C-terminal domain-like	Domain
A	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A	IPR005034	Dicer, dimerisation domain	Domain
A	IPR038248	Dicer dimerisation domain superfamily	Homologous Superfamily
A	IPR000999	Ribonuclease III domain	Domain
A	IPR014720	Double-stranded RNA-binding domain	Domain

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A	MSE	Parent Component: MET
A	OCS	Parent Component: CYS : AA0556 : L-cysteic acid (L-cysteine sulfonic acid) MOD:00460

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.